Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTGAGTACCGGTGCTTTGTCGGCGGCCTTGCCTGGGCCACCAATGATGAAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttacacgagagatcggtctcccggatcgagccgattccgatgattctgatcctcgacggatctgattccgatctgtttctctgttacttgattcg...

Basic information

species Arabidopsis thaliana
transcript AT4G39260.2
intron # 1
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86051937|gb|DR347694.1|DR347694
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|116471776|gb|EG514368.1|EG514368
EST:     TTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: TTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051923|gb|DR347680.1|DR347680
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051996|gb|DR347753.1|DR347753
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTNTCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|47830248|gb|CK119932.1|CK119932
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051920|gb|DR347677.1|DR347677
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051952|gb|DR347709.1|DR347709
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051985|gb|DR347742.1|DR347742
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051968|gb|DR347725.1|DR347725
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051928|gb|DR347685.1|DR347685
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTNTCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051926|gb|DR347683.1|DR347683
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
EST: gi|86051994|gb|DR347751.1|DR347751
EST:     AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAG                         ATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC
genomic: AAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttaca ... ttgtttacagATCATTAACGACCGCGAGAGTGGAAGATCAAGGGGATTCGGATTCGTCACC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTTGAGTACCGGTGCTTTGTCGGCGGCCTTGCCTGGGCCACCAATGATGAAGATCTTCAAAGGACGTTCTCACAGTTCGGCGACGTTATCGATTCTAAGgtctgttacacgagagatcggtctcccggatcgagccgattccgatgattctgatcctcgacggatctgattccgatctgtttctctgttacttgattcg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cggtctcc